scholarly journals Metagenomic Analysis Exploring Taxonomic and Functional Diversity of Soil Microbial Communities in Sugarcane Fields Applied with Organic Fertilizer

2020 ◽  
Vol 2020 ◽  
pp. 1-11
Author(s):  
Ruoyu Li ◽  
Ziqin Pang ◽  
Yongmei Zhou ◽  
Nyumah Fallah ◽  
Chaohua Hu ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Organic Fertilizer ◽  
Soil Microbial Communities ◽  
Soil Nutrient ◽  
Nutrient Status ◽  
Nucleotide Metabolism ◽  
Chemical Fertilizer ◽  
Organic Chemical ◽  
Soil Nutrient Status ◽  
Soil Microbial

Organic fertilizers are critically important to soil fertility, microbial communities, and sustainable agricultural strategies. We compared the effect of two fertilizer groups (organic+chemical fertilizer: OM, chemical fertilizer: CK) on sugarcane growth, by observing the difference in microbial communities and functions, soil nutrient status, and agronomic characters of sugarcane. The results showed that the sugar content and yield of sugarcane increased significantly under organic fertilizer treatment. We believe that the increased soil nutrient status and soil microorganisms are the reasons for this phenomenon. In addition, redundancy analysis (RDA) shows that the soil nutrient condition has a major impact on the soil microbial community. In comparison with CK, the species richness of Acidobacteria, Proteobacteria, Chloroflexi, and Gemmatimonadetes as well as the functional abundance of nucleotide metabolism and energy metabolism increased significantly in the OM field. Moreover, compared with CK, genes related to the absorption and biosynthesis of sulfate were more prominent in OM. Therefore, consecutive organic fertilizer application could be an effective method in reference to sustainable production of sugarcane.

scholarly journals Liming Positively Modulates Microbial Community Composition and Function of Sugarcane Fields

Agronomy ◽  
2019 ◽  
Vol 9 (12) ◽  
pp. 808 ◽  
Author(s):  
Ziqin Pang ◽  
Muhammad Tayyab ◽  
Chuibao Kong ◽  
Chaohua Hu ◽  
Zhisheng Zhu ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Arbuscular Mycorrhizae ◽  
Microbial Community Composition ◽  
Soil Nutrient ◽  
Nutrient Status ◽  
Agricultural Practice ◽  
Soil Nutrient Status ◽  
Soil Microbial ◽  
Lime Application ◽  
L1 And L2

Liming combined with an optimum quantity of inorganic fertilizer, as a soil amendment in intensive agriculture, is a viable agricultural practice in terms of improving soil nutrient status and productivity, as well as mitigating soil degradation. The chief benefits of this strategy are fundamentally dependent on soil microbial function. However, we have limited knowledge about lime’s effects on soil microbiomes and their functions, nor on its comprehensive influence on soil nutrient status and the productivity of sugarcane plantations. This study compares the impacts of lime application (1-year lime (L1), 2-year lime (L2), and no lime (CK) on microbial communities, their functions, soil nutrient status, and crop yield in a sugarcane cropping system. We employed Illumina sequencing and functional analysis (PICRUSt and FUNGuild) to decipher microbial communities and functions. In comparison with CK, lime application (L1 and L2) mitigated soil acidity, increased the level of base cations (Ca2+ and Mg2+), and improved soil nutrient status (especially through N and P) as well as soil microbial functions associated with nutrient cycling and that are beneficial to plants, thereby improving plant agronomic parameters and yield. Liming (L1 and L2) increased species richness and stimulated an abundance of Acidobacteria and Chloroflexi compared to CK. In comparison with CK, the two functional categories related to metabolism (amino acid and carbohydrate) increased in the L1 field, whereas cofactors and vitamin metabolites increased in the L2 field. Turning to fungi, compared to CK, liming enriched symbiotrophs (endophytes, ectomycorrhizae, and arbuscular mycorrhizae) and led to a reduction of saprotrophs (Zygomycota and wood saprotrophs) and pathotrophs. The observed benefits of liming were, in turn, ultimately reflected in improved sugarcane agronomic performance, such as increased stalk height and weight in the sugarcane planting system. However, the increase in the above-mentioned parameters was more prominent in the L2 field compared to the L1 field, suggesting consecutive liming could be a practical approach in terms of sustainable production of sugarcane.

scholarly journals Bio-organic fertilizers stimulate indigenous soil Pseudomonas populations to enhance plant disease suppression

Microbiome ◽  
2020 ◽  
Vol 8 (1) ◽  
Author(s):  
Chengyuan Tao ◽  
Rong Li ◽  
Wu Xiong ◽  
Zongzhuan Shen ◽  
Shanshan Liu ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Plant Pathogens ◽  
Organic Fertilizer ◽  
Soil Microbial Communities ◽  
Plant Diseases ◽  
Disease Suppression ◽  
Organic Fertilizers ◽  
Soil Microbiome ◽  
Soil Microbial ◽  
Bioorganic Fertilizer

Abstract Background Plant diseases caused by fungal pathogen result in a substantial economic impact on the global food and fruit industry. Application of organic fertilizers supplemented with biocontrol microorganisms (i.e. bioorganic fertilizers) has been shown to improve resistance against plant pathogens at least in part due to impacts on the structure and function of the resident soil microbiome. However, it remains unclear whether such improvements are driven by the specific action of microbial inoculants, microbial populations naturally resident to the organic fertilizer or the physical-chemical properties of the compost substrate. The aim of this study was to seek the ecological mechanisms involved in the disease suppressive activity of bio-organic fertilizers. Results To disentangle the mechanism of bio-organic fertilizer action, we conducted an experiment tracking Fusarium wilt disease of banana and changes in soil microbial communities over three growth seasons in response to the following four treatments: bio-organic fertilizer (containing Bacillus amyloliquefaciens W19), organic fertilizer, sterilized organic fertilizer and sterilized organic fertilizer supplemented with B. amyloliquefaciens W19. We found that sterilized bioorganic fertilizer to which Bacillus was re-inoculated provided a similar degree of disease suppression as the non-sterilized bioorganic fertilizer across cropping seasons. We further observed that disease suppression in these treatments is linked to impacts on the resident soil microbial communities, specifically by leading to increases in specific Pseudomonas spp.. Observed correlations between Bacillus amendment and indigenous Pseudomonas spp. that might underlie pathogen suppression were further studied in laboratory and pot experiments. These studies revealed that specific bacterial taxa synergistically increase biofilm formation and likely acted as a plant-beneficial consortium against the pathogen. Conclusion Together we demonstrate that the action of bioorganic fertilizer is a product of the biocontrol inoculum within the organic amendment and its impact on the resident soil microbiome. This knowledge should help in the design of more efficient biofertilizers designed to promote soil function.

Bio-Organic Fertilizers Manipulate Abundance Patterns of Rhizosphere Soil Microbial Community Structure To Improve Tomato Productivity

2021 ◽  
Author(s):  
Bintao Li ◽  
Luodi Guo ◽  
Haoming Wang ◽  
Yulong Li ◽  
Hangxian Lai ◽  
...  
Keyword(s):  
Enzyme Activity ◽  
Microbial Communities ◽  
Crop Yields ◽  
Organic Fertilizer ◽  
Soil Microbial Communities ◽  
Organic Fertilizers ◽  
Soil Microbiome ◽  
Growth Stages ◽  
Soil Microbial Community Structure ◽  
Soil Microbial

Abstract Background Bio-organic fertilizers has been shown to improve crop yields, partially because of the effects on the structure and function in resident soil microbiome. Purpose and methods Whereas, it is unknown if such improvements have been facilitated by the particular action of microbial inoculants, or the compost substrate. To understand the ecological mechanisms to increase crop productivity by bio-organic fertilizers, we conducted a pot experiment tracking soil physicochemical factors and extracellular enzyme activity over two growth stages and variations of soil microbial communities caused by fertilization practices as below: Bacillus subtilis CY1 inoculation, swine compost, and bio-organic fertilizer. Results Results showed that different fertilization measures, especially bio-organic fertilizers, increased soil nutrients, enzyme activity, and the diversity of microbial communities. For quantifying the “effect size” of microbiota manipulation, we discoverd that, respectively, 19.94% and 48.99% of variation in the bacterial and fungal communities could be interpreted using tested fertilization practices. Fertilization-sensitive microbes showed taxonomy diversity and gave responses as guilds of taxa to specific treatments. The microbes exhibited medium to high degree of co-occurrence in the network and could be recruited, directly or indirectly, by B. subtilis CY1, suggesting that bio-organic fertilizer may allow manipulation of influential community members.Conclusion Together we demonstrated that the increase in tomato productivity by bio-organic fertilizer was caused by the synergistic effect of organic fertilizer and beneficial microorganisms, thus providing novel insights into the soil microbiome manipulation strategies of biologically-enhanced organic fertilizers.

scholarly journals Does a carbonatite deposit influence its surrounding ecosystem?

FACETS ◽  
2019 ◽  
Vol 4 (1) ◽  
pp. 389-406
Author(s):  
James M.C. Jones ◽  
Elizabeth A. Webb ◽  
Michael D.J. Lynch ◽  
Trevor C. Charles ◽  
Pedro M. Antunes ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Soil Chemistry ◽  
Soil Microbial Communities ◽  
Soil Nutrient ◽  
Vegetation Survey ◽  
Northern Ontario ◽  
Soil Microbial ◽  
Bacteria And Fungi ◽  
First Time

Carbonatites are unusual alkaline rocks with diverse compositions. Although previous work has characterized the effects these rocks have on soils and plants, little is known about their impacts on local ecosystems. Using a deposit within the Great Lakes–St. Lawrence forest in northern Ontario, Canada, we investigated the effect of a carbonatite on soil chemistry and on the structure of plant and soil microbial communities. This was done using a vegetation survey conducted above and around the deposit, with corresponding soil samples collected for determining soil nutrient composition and for assessing microbial community structure using 16S/ITS Illumina Mi-Seq sequencing. In some soils above the deposit a soil chemical signature of the carbonatite was found, with the most important effect being an increase in soil pH compared with the non-deposit soils. Both plants and microorganisms responded to the altered soil chemistry: the plant communities present in carbonatite-impacted soils were dominated by ruderal species, and although differences in microbial communities across the surveyed areas were not obvious, the abundances of specific bacteria and fungi were reduced in response to the carbonatite. Overall, the deposit seems to have created microenvironments of relatively basic soil in an otherwise acidic forest soil. This study demonstrates for the first time how carbonatites can alter ecosystems in situ.

scholarly journals Organic manure managements increases soil microbial community structure and diversity in double-cropping paddy field of Southern China

2020 ◽  
Author(s):  
Haiming Tang ◽  
Xiaoping Xiao ◽  
Chao Li ◽  
Xiaochen Pan ◽  
Kaikai Cheng ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Rice Straw ◽  
Paddy Field ◽  
Southern China ◽  
Soil Microbial Communities ◽  
Organic Manure ◽  
Chemical Fertilizer ◽  
Soil Microbial ◽  
Double Cropping ◽  
Soil Bacterial

AbstractThe soil physicochemical properties were affected by different fertilizer managements, and the soil microbial communities were changed. Fertilizer regimes were closely relative to the soil texture and nutrient status in a double-cropping paddy field of southern China. However, there was limited information about the influence of different long-term fertilizer management practices on the soil microbial communities in a double-cropping rice (Oryza sativa L.) fields. Therefore, the 39-year long-term fertilizer regimes on soil bacterial and fungal diversity in a double-cropping paddy field of southern China were studied by using Illumina sequencing and quantitative PCR technology in the present paper. The filed experiment were including chemical fertilizer alone (MF), rice straw residue and chemical fertilizer (RF), 30% organic manure and 70% chemical fertilizer (OM), and without fertilizer input as a control (CK). The results showed that diversity indices of soil microbial communities with application of organic manure and rice straw residue treatments were higher than that without fertilizer input treatment. Application of organic manure and rice straw residue managements increase soil bacterial abundance of the phylum Proteobacteria, Actinobacteria, and Gammaproteobacteria, and soil fungi abundance of the phylum Basidiomycota, Zygomycota and Tremellales were also increased. Compared with CK treatment, the value of Richness, Shannon and McIntosh indices, and taxonomic diversity were increased with RF and OM treatments. This finding demonstrated that RF and OM treatments modify soil bacterial and fungal diversity. Therefore, the combined application of organic manure or rice straw residue with chemical fertilizer managements could significantly increase the abundance of profitable functional bacteria and fungi species in double-cropping rice fields of southern China.

scholarly journals Effect of Organic and Inorganic Sources of Nitrogen on Yield, Microbial Load and Soil Nutrient Status of Pearl Millet

2021 ◽  
pp. 67-75
Author(s):  
Tharapureddi Bhargavi ◽  
K. Mosha ◽  
M. Martin Luther ◽  
P. Venkata Subbaiah ◽  
N. Swetha
Keyword(s):  
Pearl Millet ◽  
Inorganic Nitrogen ◽  
Soil Nutrient ◽  
Nutrient Status ◽  
Microbial Load ◽  
Soil Nutrient Status ◽  
Similar Treatment ◽  
Soil Microbial ◽  
Soil Microbial Population ◽  
The Impact

Soil microbial population and soil nutrient status are important criteria for improving the yields. So this study is conducted with an objective to know the impact of organic and inorganic sources of nitrogen on yield, soil microbial load and nutrient status of the soil in pearl millet. A field experiment was conducted during kharif, 2019 at Agricultural College Farm, Bapatla on sandy soils with eight treatments consisting combined organic and inorganic nitrogen sources. The highest grain yield (2955 kg ha-1), straw (5867 kg ha-1) yield and soil nitrogen status (164.10 kg ha -1) were recorded with 75% Soil Test Based Nitrogen (STBN) + 25% vermicompost + Azospirillum @ 5 kg ha-1 and was followed by statistically similar treatment 100% STBN + Azospirillum @ 5 kg ha-1. Significantly higher microbial load (Bacteria, Fungi and Actinomycetes), P and K status in soil recorded with the treatments where 50% of STBN applied through FYM (50% STBN + 50% FYM + Azospirillum @ 5 kg ha-1), whereas lowest was recorded with chemical fertilizer alone. The combined sources of nitrogen both organic and inorganic fertilizers would be able to improve soil fertility and soil microbial load and finally improve the yields.

scholarly journals Bio-organic fertilizers stimulate indigenous soil Pseudomonas populations to enhance plant disease suppression

2020 ◽  
Author(s):  
Chengyuan Tao ◽  
Rong Li ◽  
Wu Xiong ◽  
Zongzhuan Shen ◽  
Shanshan Liu ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Organic Fertilizer ◽  
Soil Microbial Communities ◽  
Plant Diseases ◽  
Disease Suppression ◽  
Organic Fertilizers ◽  
Soil Microbiome ◽  
Pseudomonas Spp ◽  
Soil Microbial ◽  
Bioorganic Fertilizer

Abstract Background: Plant diseases caused by fungal pathogen result in a substantial economic impact on the global food and fruit industry. Application of organic fertilizers supplemented with biocontrol microorganisms (i.e. bioorganic fertilizers) has been shown to improve resistance against plant pathogens at least in part due to impacts on the structure and function of the resident soil microbiome. However, it remains unclear whether such improvements are driven by the specific action of microbial inoculants, microbial populations naturally resident to the organic fertilizer or the physical-chemical properties of the compost substrate. The aim of this study was to seek the ecological mechanisms involved in the disease suppressive activity of bio-organic fertilizers.Results: To disentangle the mechanism of bio-organic fertilizer action, we conducted an experiment tracking Fusarium wilt disease of banana and changes in soil microbial communities over three growth seasons in response to the following four treatments: bio-organic fertilizer (containing Bacillus amyloliquefaciens W19), organic fertilizer, sterilized organic fertilizer and sterilized organic fertilizer supplemented with B. amyloliquefaciens W19. We found that sterilized bioorganic fertilizer to which Bacillus was re-inoculated provided a similar degree of disease suppression as the non-sterilized bioorganic fertilizer. We further observed that disease suppression in these treatments could be linked to impacts on the resident soil microbial communities, with noted increases in specific Pseudomonas spp.. The link between Bacillus amendment and indigenous Pseudomonas spp. was further examined using pot experiments and biofilm assays. Conclusion: Together we demonstrate that the action of bioorganic fertilizer is a product of the biocontrol inoculum within the organic amendment and its impact on the resident soil microbiome. This knowledge should help in the design of more efficient biofertilizers designed to promote soil function.

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